BMRB Entry 26931

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR26931

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Title:
Backbone chemical shifts of the MBD2/3 methyl-cytosine binding domain from Ephydatia muelleri
Deposition date:
2016-11-01
Original release date:
2021-07-22
Authors:
Williams, David; Bilinovich, Stephanie
Citation:

Citation: Cramer, Jason; Pohlmann, Deborah; Gomez, Fernando; Mark, Leslie; Kornegay, Benjamin; Hall, Chelsea; Siraliev-Perez, Edhriz; Walavalkar, Ninad; Sperlazza, Jeannette; Bilinovich, Stephanie; Prokop, Jeremy; Hill, April; Williams, David. "Methylation specific targeting of a chromatin remodeling complex from sponges to humans"  Sci. Rep. 7, 40674-40674 (2017).
PubMed: 28094816

Assembly members:

Assembly members:
EmMBD2, polymer, 70 residues, Formula weight is not available
1xmCpG-forward, polymer, 17 residues, Formula weight is not available
1xmCpG-reverse, polymer, 17 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: sponges   Taxonomy ID: 6052   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Ephydatia muelleri

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET32

Entity Sequences (FASTA):

Entity Sequences (FASTA):
EmMBD2: GSLRVKGLPSGWKREVVVRK NGQSAGKTDVYYFSPCGKKF RSKPQIARFLGDAVDLTCFD FSRAGSPGDG
1xmCpG-forward: GAGGCGCTXGGCGGCAG
1xmCpG-reverse: CTGCCGCXGAGCGCCTC

Data sets:
Data typeCount
13C chemical shifts180
15N chemical shifts62
1H chemical shifts62

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1EmMBD21
2DNA, chain 12
3DNA, chain 23

Entities:

Entity 1, EmMBD2 70 residues - Formula weight is not available

1   GLYSERLEUARGVALLYSGLYLEUPROSER
2   GLYTRPLYSARGGLUVALVALVALARGLYS
3   ASNGLYGLNSERALAGLYLYSTHRASPVAL
4   TYRTYRPHESERPROCYSGLYLYSLYSPHE
5   ARGSERLYSPROGLNILEALAARGPHELEU
6   GLYASPALAVALASPLEUTHRCYSPHEASP
7   PHESERARGALAGLYSERPROGLYASPGLY

Entity 2, DNA, chain 1 17 residues - Formula weight is not available

X=mC

1   DGDADGDGDCDGDCDT3MCDG
2   DGDCDGDGDCDADG

Entity 3, DNA, chain 2 17 residues - Formula weight is not available

X=mC

1   DCDTDGDCDCDGDC3MCDGDA
2   DGDCDGDCDCDTDC

Samples:

sample_1: EmMBD2, [U-99% 13C; U-99% 15N], 0.5 mM; 1xmCpG-forward 0.5 mM; 1xmCpG-reverse 0.5 mM; sodium phosphate 10 mM

sample_conditions_1: ionic strength: 30 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

CcpNMR, CCPN - chemical shift assignment

NMR spectrometers:

  • Bruker INOVA 700 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks